{"id":"W3204025012","doi":"10.1016/j.xpro.2021.100794","title":"CloneSeq - Single-cell clonal 3D culture and analysis protocol","year":2021,"lang":"en","type":"article","venue":"STAR Protocols","topic":"Single-cell and spatial transcriptomics","field":"Biochemistry, Genetics and Molecular Biology","cited_by":4,"is_retracted":false,"has_abstract":true,"ca_institutions":"","funders":"H2020 European Research Council; Israeli Centers for Research Excellence; Azrieli Foundation; Israel Science Foundation; European Research Council; Horizon 2020 Framework Programme; FP7 Coherent Development of Research Policies","keywords":"Protocol (science); Computational biology; Adaptation (eye); Sensitivity (control systems); Clonal selection; Biology; Cell; Computer science; Cell biology; Genetics; Immunology; Medicine; Neuroscience; Engineering","routes":{"ca_aff":false,"ca_fund":true,"ca_venue":false,"about_ca":false,"invisible_to_affiliation_only":true},"retraction":null,"screen":null,"direct_labels":[],"prediction":{"model_version":"codex-gemma-dda1882f352a","candidate_categories":[],"consensus_categories":[],"category_scores_codex":[0.0001411554,0.0002340201,0.0002709848,0.00004833818,0.0001250958,0.0001056546,0.0001566415,0.0002311347,0.0001273889],"category_scores_gemma":[0.00003641709,0.000209014,0.0001835452,0.0003110314,0.00009023487,0.00000699493,0.0001033926,0.0001510162,0.000007020282],"about_ca_system_candidate":false,"about_ca_system_consensus":false,"about_ca_system_score_codex":0.00001610772,"about_ca_system_score_gemma":0.0001289286,"about_ca_topic_candidate":false,"about_ca_topic_consensus":false,"about_ca_topic_score_codex":0.00001280757,"about_ca_topic_score_gemma":0.00007143847,"domain_scores_codex":[0.9985403,0.0001099523,0.0002853596,0.0005650565,0.0001996767,0.0002996528],"domain_scores_gemma":[0.999153,0.000007402473,0.00009333058,0.0004189821,0.0001911525,0.0001361776],"domain_codex":null,"domain_gemma":null,"domain_candidate":null,"domain_consensus":null,"study_design_codex":"bench_or_experimental","study_design_gemma":"bench_or_experimental","study_design_scores_codex":[0.000284126,0.0004754628,0.01584191,0.0001903221,0.0002214253,0.00002544557,0.0001006433,0.00001995891,0.9802484,0.00004146006,0.0009004239,0.001650436],"study_design_scores_gemma":[0.001944632,0.0006224312,0.001521613,0.00002731915,0.0001031869,0.00001531006,0.00004159734,0.0001117934,0.6028722,0.00008244375,0.3923069,0.000350526],"study_design_candidate":"bench_or_experimental","study_design_consensus":"bench_or_experimental","genre_codex":"protocol","genre_gemma":"protocol","genre_scores_codex":[0.1300492,0.0001505318,0.007648219,0.0001994724,0.00008957864,0.8482897,0.0002565237,0.00009532945,0.01322143],"genre_scores_gemma":[0.03578263,0.000005266013,0.01418866,0.0004801709,0.0003494707,0.9433695,0.0004118074,0.00005165369,0.005360814],"genre_candidate":"protocol","genre_consensus":"protocol","teacher_disagreement_score":0.3914065,"threshold_uncertainty_score":0.8523344,"prediction_status":"machine_predicted_unvalidated"},"machine_scores":{"provisional":true,"baseline":true,"maturity_gate_passed":false,"score_opus":0.02078226811624943,"score_gpt":0.2850245002695352,"score_spread":0.2642422321532858,"validation_status":"score_only:v0-immature-baseline","note":"Baseline scores from an immature model (maturity gate not passed). Scores rank; they never assert a category."}}